6ug7 - Revision history

OCA at 07:50, 11 October 2023

OCA — Wed, 11 Oct 2023 07:50:33 GMT

←Older revision		Revision as of 07:50, 11 October 2023
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	<StructureSection load='6ug7' size='340' side='right'caption='[[6ug7]], [[Resolution\|resolution]] 1.52Å' scene=''>		<StructureSection load='6ug7' size='340' side='right'caption='[[6ug7]], [[Resolution\|resolution]] 1.52Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[6ug7]] is a 2 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~Lk3_transgenic_mice Lk3 transgenic mice~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6UG7 OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=6UG7 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[6ug7]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Mus_musculus Mus musculus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6UG7 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=6UG7 FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=BGC:BETA-D-GLUCOSE'>BGC</scene>, <scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene>, <scene name='pdbligand=GAL:BETA-D-GALACTOSE'>GAL</scene>, <scene name='pdbligand=GLA:ALPHA+D-GALACTOSE'>GLA</scene>, <scene name='pdbligand=NGA:N-ACETYL-D-GALACTOSAMINE'>NGA</scene>, <scene name='pdbligand=SIA:O-SIALIC+ACID'>SIA</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>	+	</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models\|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution\|Resolution]] 1.52Å</td></tr>
-	<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=6ug7 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6ug7 OCA], [~~http~~://pdbe.org/6ug7 PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=6ug7 RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/6ug7 PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=6ug7 ProSAT]</span></td></tr>	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=BGC:BETA-D-GLUCOSE'>BGC</scene>, <scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene>, <scene name='pdbligand=GAL:BETA-D-GALACTOSE'>GAL</scene>, <scene name='pdbligand=GLA:ALPHA+D-GALACTOSE'>GLA</scene>, <scene name='pdbligand=NGA:N-ACETYL-D-GALACTOSAMINE'>NGA</scene>, <scene name='pdbligand=SIA:O-SIALIC+ACID'>SIA</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>
		+	<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=6ug7 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6ug7 OCA], [https://pdbe.org/6ug7 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6ug7 RCSB], [https://www.ebi.ac.uk/pdbsum/6ug7 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6ug7 ProSAT]</span></td></tr>
	</table>		</table>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
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	</div>		</div>
	<div class="pdbe-citations 6ug7" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 6ug7" style="background-color:#fffaf0;"></div>
		+
		+	==See Also==
		+	*[[Antibody 3D structures\|Antibody 3D structures]]
	== References ==		== References ==
	<references/>		<references/>
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	</StructureSection>		</StructureSection>
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: ~~Lk3 transgenic mice~~]]	+	[[Category: Mus musculus]]
-	[[Category: Ramsland~~, P A~~]]	+	[[Category: Ramsland PA]]
-	[[Category: Soliman, C]]	+	[[Category: Soliman C]]
-	~~[[Category: Antigen binding fragment]]~~	+
-	~~[[Category: Chimeric antibody]]~~	+
-	~~[[Category: Complex]]~~	+
-	~~[[Category: Immune system]]~~	+
-	~~[[Category: Immunoglobulin]]~~	+
-	~~[[Category: Ssea-4~~]]	+

OCA at 12:23, 1 January 2020

OCA — Wed, 01 Jan 2020 12:23:37 GMT

←Older revision		Revision as of 12:23, 1 January 2020
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	<StructureSection load='6ug7' size='340' side='right'caption='[[6ug7]], [[Resolution\|resolution]] 1.52Å' scene=''>		<StructureSection load='6ug7' size='340' side='right'caption='[[6ug7]], [[Resolution\|resolution]] 1.52Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[6ug7]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6UG7 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6UG7 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[6ug7]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Lk3_transgenic_mice Lk3 transgenic mice]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6UG7 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6UG7 FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=BGC:BETA-D-GLUCOSE'>BGC</scene>, <scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene>, <scene name='pdbligand=GAL:BETA-D-GALACTOSE'>GAL</scene>, <scene name='pdbligand=GLA:ALPHA+D-GALACTOSE'>GLA</scene>, <scene name='pdbligand=NGA:N-ACETYL-D-GALACTOSAMINE'>NGA</scene>, <scene name='pdbligand=SIA:O-SIALIC+ACID'>SIA</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=BGC:BETA-D-GLUCOSE'>BGC</scene>, <scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene>, <scene name='pdbligand=GAL:BETA-D-GALACTOSE'>GAL</scene>, <scene name='pdbligand=GLA:ALPHA+D-GALACTOSE'>GLA</scene>, <scene name='pdbligand=NGA:N-ACETYL-D-GALACTOSAMINE'>NGA</scene>, <scene name='pdbligand=SIA:O-SIALIC+ACID'>SIA</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>
	<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6ug7 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6ug7 OCA], [http://pdbe.org/6ug7 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6ug7 RCSB], [http://www.ebi.ac.uk/pdbsum/6ug7 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6ug7 ProSAT]</span></td></tr>		<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6ug7 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6ug7 OCA], [http://pdbe.org/6ug7 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6ug7 RCSB], [http://www.ebi.ac.uk/pdbsum/6ug7 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6ug7 ProSAT]</span></td></tr>
	</table>		</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Cancer remains a leading cause of morbidity and mortality worldwide, requiring ongoing development of targeted therapeutics such as monoclonal antibodies. Carbohydrates on embryonic cells are often highly expressed in cancer and are therefore attractive targets for antibodies. Stage-specific embryonic antigen-4 (SSEA-4) is one such glycolipid target expressed in many cancers, including breast and ovarian carcinomas. Here, we defined the structural basis for recognition of SSEA-4 by a novel monospecific chimeric antibody (ch28/11). Five X-ray structures of ch28/11 Fab complexes with the SSEA-4 glycan headgroup, determined at 1.5-2.7 A resolutions, displayed highly similar 3D structures indicating a stable binding mode. The structures also revealed that by adopting a horseshoe-shaped conformation in a deep groove, the glycan headgroup likely sits flat against the membrane to allow the antibody to interact with SSEA-4 on cancer cells. Moreover, we found that the terminal sialic acid of SSEA-4 plays a dominant role in dictating the exquisite specificity of the ch28/11 antibody. This observation was further supported by molecular dynamics simulations of the ch28/11-glycan complex, which show SSEA-4 is stabilized by its terminal sialic acid, unlike SSEA-3 which lacks this sialic acid modification. These high-resolution views of how a glycolipid interacts with an antibody may help advance a new class of cancer-targeting immunotherapy.
		+
		+	The terminal sialic acid of stage-specific embryonic antigen-4 has a crucial role in binding to a cancer-targeting antibody.,Soliman C, Chua JX, Vankemmelbeke M, McIntosh RS, Guy AJ, Spendlove I, Durrant LG, Ramsland PA J Biol Chem. 2019 Dec 12. pii: RA119.011518. doi: 10.1074/jbc.RA119.011518. PMID:31831622<ref>PMID:31831622</ref>
		+
		+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
		+	</div>
		+	<div class="pdbe-citations 6ug7" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
	[[Category: Large Structures]]		[[Category: Large Structures]]
		+	[[Category: Lk3 transgenic mice]]
	[[Category: Ramsland, P A]]		[[Category: Ramsland, P A]]
	[[Category: Soliman, C]]		[[Category: Soliman, C]]

OCA at 07:59, 18 December 2019

OCA — Wed, 18 Dec 2019 07:59:46 GMT

←Older revision		Revision as of 07:59, 18 December 2019
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-	'''Unreleased structure'''

-	~~The entry~~ 6ug7 ~~is ON HOLD until Paper Publication~~	+	==Complex of ch28/11 Fab and SSEA-4 (tetragonal form)==
-		+	<StructureSection load='6ug7' size='340' side='right'caption='[[6ug7]], [[Resolution\|resolution]] 1.52Å' scene=''>
-	~~Authors~~:	+	== Structural highlights ==
-		+	<table><tr><td colspan='2'>[[6ug7]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6UG7 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6UG7 FirstGlance]. <br>
-	~~Description~~:	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=BGC:BETA-D-GLUCOSE'>BGC</scene>, <scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene>, <scene name='pdbligand=GAL:BETA-D-GALACTOSE'>GAL</scene>, <scene name='pdbligand=GLA:ALPHA+D-GALACTOSE'>GLA</scene>, <scene name='pdbligand=NGA:N-ACETYL-D-GALACTOSAMINE'>NGA</scene>, <scene name='pdbligand=SIA:O-SIALIC+ACID'>SIA</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>
-	[[Category: ~~Unreleased~~ Structures]]	+	<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6ug7 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6ug7 OCA], [http://pdbe.org/6ug7 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6ug7 RCSB], [http://www.ebi.ac.uk/pdbsum/6ug7 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6ug7 ProSAT]</span></td></tr>
		+	</table>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Large Structures]]
		+	[[Category: Ramsland, P A]]
		+	[[Category: Soliman, C]]
		+	[[Category: Antigen binding fragment]]
		+	[[Category: Chimeric antibody]]
		+	[[Category: Complex]]
		+	[[Category: Immune system]]
		+	[[Category: Immunoglobulin]]
		+	[[Category: Ssea-4]]

OCA at 05:07, 23 October 2019

OCA — Wed, 23 Oct 2019 05:07:53 GMT

←Older revision		Revision as of 05:07, 23 October 2019
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 6ug7 is ON HOLD	+	The entry 6ug7 is ON HOLD until Paper Publication

	Authors:		Authors:

OCA: Protected "6ug7" [edit=sysop:move=sysop]

OCA — Wed, 02 Oct 2019 08:48:31 GMT

Protected "6ug7" [edit=sysop:move=sysop]

←Older revision

Revision as of 08:48, 2 October 2019

OCA: New page: '''Unreleased structure''' The entry 6ug7 is ON HOLD Authors: Description: Category: Unreleased Structures

OCA — Wed, 02 Oct 2019 08:48:29 GMT

New page: '''Unreleased structure''' The entry 6ug7 is ON HOLD Authors: Description: Category: Unreleased Structures

New page

'''Unreleased structure'''

The entry 6ug7 is ON HOLD

Authors:

Description:
[[Category: Unreleased Structures]]